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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtttttaatgtagacatgcatagctttaacttatgctactttttttcccttctgaaaatgctgtagtgttaatttcagaagacttgtgtcttccatacagGTCACTTCTACCCTTACATTTGCAGCAGCCTGTGCATCAGCAGGCATCACAATCCTCATTGATAATGATCTTGGTAATTGTTCACAGAACCACTGTGTGC

Basic information

species Glycine max
transcript GLYMA12G08090.3
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G08090.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv06s0004g02790.t01 (Vitis vinifera), 3'ss of exon 2
gtttttaatgtagacatgcatagctttaacttatgctactttttttccct-tctgaaaatgctgtagtgttaatttcagaagacttgtgtcttccatacagGTCACTTCTACCCTTACATTTGCAGCAGCCTGTGCATCAGCAGGCATCACAATCCTCATTGATAATGATCTTGGTAATTGTTCACAGAACCACTGTGTGC
  | |  |  |    |    | | ||| |||||| | | ||       || | |     |  | ||  | | | |  ||| |  |    | ||   | ||| |||| || || ||||||||||| |||||||||||||| |||||||| ||  |||| |||| ||||||||||  ||  ||| | || ||| ||||  |  
-ctatgtagattatgacttgtgggttttacttattcaaattcaaagggctatgtactcctattttacagcttaatctagatgtgtccctttttggctgcagATCACATCCACTCTTACATTTGCTGCAGCCTGTGCATCTGCAGGCATTACCGTCCTTATTGGTAATGATCTTAATAGCTGTGCCCACAACAACTGCTTAG
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|15813988|gb|BI786263.1|BI786263
EST:     GTTCTTTGCAGAACTATCGAATTGTCAGTTTGTTTACAATTGGTGACGGG                         GTCACTTCTACCCTTACATTTGCAGCAGCCTGTGCATCAGCAGGCATCACA
genomic: GTTCTTTGCAGAACTATCGAATTGTCAGTTTGTTTACAATTGGTGACGGGgtaagatcta ... ttccatacagGTCACTTCTACCCTTACATTTGCAGCAGCCTGTGCATCAGCAGGCATCACA
EST: gi|58018228|gb|CX704970.1|CX704970
EST:     GTTCTTTGCAGAACTATCGAATTGTCAGTTTGTTTACAATTGGTGACGGG                         GTCACTTCTACCCTTACATTTGCAGCAGCCTGTGCATCAGCAGGCATCACA
genomic: GTTCTTTGCAGAACTATCGAATTGTCAGTTTGTTTACAATTGGTGACGGGgtaagatcta ... ttccatacagGTCACTTCTACCCTTACATTTGCAGCAGCCTGTGCATCAGCAGGCATCACA
EST: gi|151404656|gb|EV274470.1|EV274470
EST:     GTTCTTTGCAGAACTATCGAATTGTCAGTTTGTTTACAATTGGTGACGGG                         GTCACTTCTACCCTTACATTTGCTGCAGCCTGTGCATCAGCAGGCATCACA
genomic: GTTCTTTGCAGAACTATCGAATTGTCAGTTTGTTTACAATTGGTGACGGGgtaagatcta ... ttccatacagGTCACTTCTACCCTTACATTTGCAGCAGCCTGTGCATCAGCAGGCATCACA
EST: gi|17021342|gb|BM092376.1|BM092376
EST:     GTTCTTTGCAGAACTATCGAATTGTCAGTTTGTTTACAATTGGTGACGGG                         GTCACTTCTACCCTTACATTTGCAGCAGCCTGTGCATCAGCAGGCATCACA
genomic: GTTCTTTGCAGAACTATCGAATTGTCAGTTTGTTTACAATTGGTGACGGGgtaagatcta ... ttccatacagGTCACTTCTACCCTTACATTTGCAGCAGCCTGTGCATCAGCAGGCATCACA
EST: gi|254323550|gb|GR835996.1|GR835996
EST:     G-TCTTTGCAGAACTATCGAATTGTCAGTTTGTTTACAATTGGTGACGGG                         GTCACTTCTACCCTTACATTTGCAGCAGCCTGTGCATCAGCAGGCATCACA
genomic: GTTCTTTGCAGAACTATCGAATTGTCAGTTTGTTTACAATTGGTGACGGGgtaagatcta ... ttccatacagGTCACTTCTACCCTTACATTTGCAGCAGCCTGTGCATCAGCAGGCATCACA
EST: gi|192325870|gb|FK016547.1|FK016547
EST:     GTTCTTTGCAGAACTATCGAATTGTCAGTTTGTTTACAATTGGTGACGGG                         GTCACTTCTACCCTTACATTTGCAGCAGCCTGTGCATCAGCAGGCATCACA
genomic: GTTCTTTGCAGAACTATCGAATTGTCAGTTTGTTTACAATTGGTGACGGGgtaagatcta ... ttccatacagGTCACTTCTACCCTTACATTTGCAGCAGCCTGTGCATCAGCAGGCATCACA
EST: gi|7686466|gb|AW757114.1|AW757114
EST:     GTTCTTTGCAGAACTATCGAATTGTCAGTTTGTTTACAATTGGTGACGGG                         GTCACTTCTACCCTTACATTTGCAGCAGCCTGTGCATCAGCAGGCATCACA
genomic: GTTCTTTGCAGAACTATCGAATTGTCAGTTTGTTTACAATTGGTGACGGGgtaagatcta ... ttccatacagGTCACTTCTACCCTTACATTTGCAGCAGCCTGTGCATCAGCAGGCATCACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcccttctgaaaatgctgtagtgttaatttcagaagacttgtgtcttccatacagGTCACTTCTACCCTTACATTTGCAGCAGCCTGTGCATCAGCAGGCATCACAATCCTCATTGATAATGATCTTGGTAATTGTTCACAGAACCACTGTGTGC
                     tgttaat  putative branch site (score: 3)
                                         tgtcttcc  putative PPT
                     tgttaattt  TA-rich tract